BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 016970
(379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P82|A Chain A, Cysteine Protease Atg4a
pdb|2P82|B Chain B, Cysteine Protease Atg4a
pdb|2P82|C Chain C, Cysteine Protease Atg4a
pdb|2P82|D Chain D, Cysteine Protease Atg4a
Length = 355
Score = 160 bits (404), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 89/287 (31%), Positives = 143/287 (49%), Gaps = 21/287 (7%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
D S+R+ +YR+ F PIG + +SD GWGCMLR QM++AQAL+ LGR W QK
Sbjct: 44 DISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDWSWEKQKEQ 103
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGP---------YAMCRSWEAL 210
+EY IL F D + +SIH + Q G G + G W GP A+ W +L
Sbjct: 104 PKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSL 163
Query: 211 ARCQRAETGLGCQSLPMAIYV--VSGDEDGERGGAPVVCIDDA---SRHCSVFSKGQADW 265
A + + + + V +S D G+R + + + S +CS W
Sbjct: 164 AVYVSMDNTVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSA-------W 216
Query: 266 TPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDP 325
P+ ++NP Y+ + F PQSLG +GGKP + Y +G + I+LDP
Sbjct: 217 KPLLLIVPLRLGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDP 276
Query: 326 HDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
H Q ++ ++ D + + + +++ ++DPS+A+GF+C+++
Sbjct: 277 HTTQTFVDTEENGTVNDQTFHCLQSPQRMNILNLDPSVALGFFCKEE 323
>pdb|2D1I|A Chain A, Structure Of Human Atg4b
pdb|2D1I|B Chain B, Structure Of Human Atg4b
Length = 398
Score = 157 bits (398), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 95/288 (32%), Positives = 138/288 (47%), Gaps = 25/288 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
D +SR+ +YRK F IG + TSD GWGCMLR QM+ AQAL+ LGR WR +K
Sbjct: 50 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 109
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
Y +L+ F D + S +SIH + Q G G + G W GP + + + LA +
Sbjct: 110 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 168
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
+A+++ V +E V C D+ RHC+ F G
Sbjct: 169 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 221
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
+ W P+ +N Y+ TL+ F PQSLG++GGKP ++ Y +G E IY
Sbjct: 222 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 281
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
LDPH QP + D S + + + +DPS+A+GF+C+
Sbjct: 282 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCK 329
>pdb|2CY7|A Chain A, The Crystal Structure Of Human Atg4b
Length = 396
Score = 157 bits (398), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 95/288 (32%), Positives = 138/288 (47%), Gaps = 25/288 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
D +SR+ +YRK F IG + TSD GWGCMLR QM+ AQAL+ LGR WR +K
Sbjct: 48 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
Y +L+ F D + S +SIH + Q G G + G W GP + + + LA +
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
+A+++ V +E V C D+ RHC+ F G
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
+ W P+ +N Y+ TL+ F PQSLG++GGKP ++ Y +G E IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
LDPH QP + D S + + + +DPS+A+GF+C+
Sbjct: 280 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCK 327
>pdb|2Z0D|A Chain A, The Crystal Structure Of Human Atg4b- Lc3(1-120) Complex
pdb|2Z0E|A Chain A, The Crystal Structure Of Human Atg4b- Lc3(1-124) Complex
Length = 357
Score = 154 bits (390), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 94/290 (32%), Positives = 138/290 (47%), Gaps = 25/290 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
D +SR+ +YRK F IG + TSD GWGCMLR QM+ AQAL+ LGR WR +K
Sbjct: 48 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
Y +L+ F D + S +SIH + Q G G + G W GP + + + LA +
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
+A+++ V +E V C D+ RHC+ F G
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
+ W P+ +N Y+ TL+ F PQSLG++GGKP ++ Y +G E IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
LDP QP + D S + + + +DPS+A+GF+C+ +
Sbjct: 280 LDPATTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCKTE 329
>pdb|2ZZP|A Chain A, The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-124)
Complex
Length = 357
Score = 154 bits (389), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 94/290 (32%), Positives = 138/290 (47%), Gaps = 25/290 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
D +SR+ +YRK F IG + TSD GWG MLR QM+ AQAL+ LGR WR +K
Sbjct: 48 DVASRLWFTYRKNFPAIGGTGPTSDTGWGSMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
Y +L+ F D + S +SIH + Q G G + G W GP + + + LA +
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
+A+++ V +E V C D+ RHC+ F G
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
+ W P+ +N Y+ TL+ F PQSLG++GGKP ++ Y +G E IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
LDPH QP + D S + + + +DPS+A+GF+C+ +
Sbjct: 280 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCKTE 329
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,826,921
Number of Sequences: 62578
Number of extensions: 418433
Number of successful extensions: 790
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 776
Number of HSP's gapped (non-prelim): 9
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)